/******************************************************************************
	This file is a part of the Snapshot Bioinformatics Project

	Copyright (C) 2012-2013 Jarom Schow

	This program is free software: you can redistribute it and/or modify
	it under the terms of the GNU General Public License as published by
	the Free Software Foundation, either version 3 of the License, or
	(at your option) any later version.

	This program is distributed in the hope that it will be useful,
	but WITHOUT ANY WARRANTY; without even the implied warranty of
	MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
	GNU General Public License for more details.

	You should have received a copy of the GNU General Public License
	along with this program.  If not, see <http://www.gnu.org/licenses/>.
******************************************************************************/
#ifndef SEQUENCE_H
#define SEQUENCE_H

#include "Alphabet.h"

#include <QtCore/QByteArray>

namespace Bio {

class BIO_EXPORT Sequence {
public:
	enum Alphabet { DNA, RNA, Protein, Unknown };

	Sequence();
	Sequence( const QByteArray &seq );
	virtual ~Sequence();

	int			getLength() const;

	QByteArray	getSequence() const;
	void		setSequence( const QByteArray &seq );

	Alphabet	getAlphabet() const;
	void		setAlphabet( Alphabet alphabet );

	Sequence&	operator=( const Sequence &seq );

private:

	Alphabet	m_alphabet;
	QByteArray	m_seq;
};

}; // Bio

#endif // SEQUENCE_H